Python toolkit for analysis, visualization, and comparison of spike sorting output
Project description
SpikeInterface
SpikeInterface is a Python framework designed to unify preexisting spike sorting technologies into a single code base.
spikeinterface is a meta-package that wraps 5 other Python packages from the SpikeInterface team:
- spikeextractors: Data file I/O and probe handling.
- spiketoolkit: Toolkit for pre-processing, post-processing, validation, and automatic curation.
- spikesorters: Python wrappers to spike sorting algorithms.
- spikecomparison: Comparison of spike sorting output (with and without ground-truth).
- spikewidgets: Data visualization widgets.
ALPHA version. The release of an beta version is scheduled for August 31st 2019
Installation
Clone the repository and install from sources:
git clone https://github.com/SpikeInterface/spikeinterface.git
cd spikeinterface
pip install .
Soon a pip install spikeinterface will be available!
Examples
For using SpikeInterface, please checkout these examples.
Also, you can checkout this tutorial for getting started with SpikeInterface.
Documentation
All documentation for SpikeInterface can be found here: https://spikeinterface.readthedocs.io/en/latest/.
Authors
Alessio Paolo Buccino - Center for Inegrative Neurolasticity (CINPLA), Department of Biosciences, Physics, and Informatics, University of Oslo, Oslo, Norway
Cole Hurwitz - The Institute for Adaptive and Neural Computation (ANC), University of Edinburgh, Edinburgh, Scotland
Jeremy Magland - Center for Computational Biology (CCB), Flatiron Institute, New York, United States
Matthias Hennig - The Institute for Adaptive and Neural Computation (ANC), University of Edinburgh, Edinburgh, Scotland
Samuel Garcia - Centre de Recherche en Neuroscience de Lyon (CRNL), Lyon, France
For any correspondence, contact Alessio Buccino (alessiop.buccino@gmail.com), Cole Hurwitz (cole.hurwitz@ed.ac.uk), or just write an issue!
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